breseq  version 0.29.0  revision 8f9c342918e4 mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Marginal read alignment evidence (highest frequency 20 of 843 shown)
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	357,890	0	C	A	56.6%	14.7 / 67.4	53	L267F (TTG→TTT)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	501,575	0	A	C	50.0%	84.5 / 17.3	62	V555G (GTG→GGG)	ybaL	inner membrane putative NAD(P)‑binding transporter
*	NC_000913	599,576	0	T	G	47.9%	86.0 / 41.0	72	V288G (GTG→GGG)	cusA	copper/silver efflux system, membrane component
*	NC_000913	2,984,441	0	A	C	47.1%	97.1 / 22.1	68	G384G (GGT→GGG)	yqeF	short chain acyltransferase
*	NC_000913	357,880	0	T	C	46.4%	53.9 / 30.5	56	K271E (AAA→GAA)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	2,001,911	0	G	A	46.2%	97.9 / 53.4	93	intergenic (‑122/+199)	fliA/fliC	RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein (flagellin)
*	NC_000913	4,555,109	0	T	A	44.9%	139.5 / 43.6	99	N178K (AAT→AAA)	uxuR	fructuronate‑inducible hexuronate regulon transcriptional repressor; autorepressor
*	NC_000913	501,564	0	A	C	44.8%	108.8 / 19.4	67	*559E (TAA→GAA)	ybaL	inner membrane putative NAD(P)‑binding transporter
*	NC_000913	1,621,118	0	A	C	44.0%	110.1 / 19.6	77	V7G (GTG→GGG)	eamA	cysteine and O‑acetyl‑L‑serine efflux system
*	NC_000913	4,555,119	0	A	G	43.9%	112.6 / 46.4	98	I182V (ATC→GTC)	uxuR	fructuronate‑inducible hexuronate regulon transcriptional repressor; autorepressor
*	NC_000913	2,001,918	0	A	C	43.3%	147.2 / 17.6	90	intergenic (‑129/+192)	fliA/fliC	RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein (flagellin)
*	NC_000913	599,579	0	T	G	43.1%	114.7 / 13.9	72	V289G (GTG→GGG)	cusA	copper/silver efflux system, membrane component
*	NC_000913	2,781,645	0	A	C	42.7%	150.6 / 13.9	90	V361G (GTT→GGT)	ypjA	adhesin‑like autotransporter
*	NC_000913	4,580,634	0	C	T	42.7%	128.2 / 36.1	91	E277K (GAA→AAA)	hsdS	specificity determinant for hsdM and hsdR
*	NC_000913	2,326,450	0	T	G	42.2%	103.6 / 28.8	71	G114G (GGT→GGG)	atoB	acetyl‑CoA acetyltransferase
*	NC_000913	4,381,728	0	A	C	42.2%	150.5 / 21.4	91	G197G (GGT→GGG)	frdA	anaerobic fumarate reductase catalytic and NAD/flavoprotein subunit
*	NC_000913	213,341	0	A	G	42.2%	120.2 / 29.2	83	G337G (GGA→GGG)	tilS	tRNA(Ile)‑lysidine synthetase
*	NC_000913	29,496	0	T	A	42.1%	146.3 / 53.9	95	intergenic (+301/‑155)	dapB/carA	dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase
*	NC_000913	357,875	0	A	T	42.1%	81.4 / 23.5	58	N272K (AAT→AAA)	cynR	transcriptional activator of cyn operon; autorepressor
*	NC_000913	3,350,853	0	A	C	42.0%	137.1 / 17.2	81	S725A (TCA→GCA)	arcB	aerobic respiration control sensor histidine protein kinase, cognate to two‑component response regulators ArcA and RssB

Marginal new junction evidence (sorted from low to high skew)
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	925901 =	79 (0.810)	14 (0.140) +C	13/296	12.6	16.5%	noncoding (71/88 nt)	serW	tRNA‑Ser
	?	NC_000913	= 1097399	64 (0.650)					intergenic (+570/+166)	ycdU/serX	putative inner membrane protein/tRNA‑Ser
*	?	NC_000913	4542682 =	131 (1.340)	7 (0.080)	7/280	15.5	5.6%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913	4542996 =	112 (1.220)					intergenic (+363/‑119)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)